(* as PI or corresponding author; h-index: 32, WoS, Scopus, PubMed, ORCiD, Publon, Loop updated July, 2022)

  1. Multi-functional Photo-Crosslinking Probes: From Target Protein Searching to Imaging Applications

  2. Levosimendan prevents tau pathology by inhibiting disulfide-linked tau oligomerization posing as a promising anti-tau therapeutics

    • Lim, S.; Shin, S.; Lee, H. E.; Song, J. Y.; Sung, Y.; Lee, G. H.; Yu, B. Y.; Aziz, H.; Lukianenko, N.; Kim, K. H.; Jeong, H.; Lim, S. M.; Lee, J. S.; Pae, A. N.; Kim, Y. K.

    • Exp. Mol. Med. 2023, in press, (Research Square, 2021, pre-print.)

  3. Dual-modal iridium-based self-immolative chemosensors for differential responses against reactive oxygen species and their applications to detect diabetes

  4. Orthogonally-Tunable and ER-Targeting Fluorophores Detect Avian Influenza Virus Early Infection

  5. Temporal control of protein labeling by photo-caged benzaldehyde motif and discovery of host cell factors of avian influenza virus infection

  6. Development of tricyanofuran-based activity probes for sulfatase assay in live cells

  7. Discovery of penta-peptides inhibiting activity of formylglycine generating enzyme and its potential antibacterial effect against Mycobacterium tuberculosis

  8. Chemical Probes and Activity-based Protein Profiling for Cancer Research

  9. Organelle-specific Fluorescent Phenomics and Transcriptomic Profiling to Evaluate Cellular Response to Tris(1,3 dichloro 2 propyl)phosphate

  10. Dabigatran acylglucuronide, the major metabolite of dabigatran, shows a weaker anticoagulant effect than dabigatran

  11. Bioinformatic expansion of borosins uncovers trans-acting peptide backbone N-methyltransferases in bacteria

  12. Structural optimization of 4-(imidazol-5-yl)pyridine derivatives affords broad-spectrum anticancer agents with selective B-RAFV600E/p38α kinase inhibitory activity: Synthesis, in vitro assays and in silico study

    • Ali, E. M. H.; Mersal, K. I.; Ammar, U. M.; Zaraei, S. O.; Abdel-Maksoud, M. S.; El-Gamal M. I.; Haque, M. H.; Das, T.; Kim, E.; Lee, J. S.; Lee, Lee, K. H.; Kim, H. K.; Oh, C.

    • Eur. J. Pharm. Sci., 2022, 171, 106115.

  13. Recent trends in molecular aggregates: an exploration of biomedicine

  14. Proximity Labeling Techniques: a Multi-Omics Toolbox

  15. Recent Advances in Protein Modifications Targeting N-terminal Cysteine

  16. Near-infrared benzodiazoles as small molecule environmentally-sensitive fluorophores

  17. Development of a bifunctional BODIPY probe for mitochondria imaging and in situ photo-crosslinking in live cell

  18. Photoactivatable Metabolic Warheads Enable Precise and Safe Ablation of Target Cells in Vivo

  19. Application of Fluorescent turn-on Aptamers in RNA Studies


  1. A pyridinyl-pyrazole BODIPY as lipid droplets probe

  2. Kidney-Targeted Cytosolic Delivery of siRNA Using a Small-Sized Mirror DNA Tetrahedron for Enhanced Potency

  3. Role of microRNA and Oxidative Stress in Influenza A Virus Pathogenesis

  4. 2-Anilinoquinoline based arylamides as broad spectrum anticancer agents with B-RAFV600E/C-RAF kinase inhibitory effects: Design, synthesis, in vitro cell-based and oncogenic kinase assessments

  5. Activity-based probes for the high temperature requirement A serine proteases

  6. Targeted Degradation of Transcription Co-activator SRC-1 through the N-Degron Pathway

  7. Label-free proteome profiling as a quantitative target identification technique for bioactive small molecules

  8. Investigation of memory-enhancing botanical mixture and their isolated compounds for inhibition of amyloid-β and tau aggregation

  9. Affinity-based Protein Profiling Reveals Cellular Targets of Photoreactive Anticancer Inhibitors

  10. A Near-Infrared Probe Tracks and Treats Lung Tumor Initiating Cells by Targeting HMOX2

    • Kim, J. J.; Lee, Y. A.; Su. D.; Lee, J.; Park, S. J.; Kim, B.; Lee, J. H. J.; Liu, X.; Kim, S. S.; Bae, M. A.; Lee, J. S.; Hong, S. C.; Wang, L.; Samanta, A.; Kwon, H. Y.; Choi, S. Y.; Kim, J. Y.; Yu, Y. H.; Ha, H. H.; Wang, Z.; Tam, W. L.; Lim, B.; Kang, N. Y.; Chang, Y. T.

    • J. Am. Chem. Soc. 2019, 141,14673-14686.

  11. Pan-HDAC Inhibitors Promote Tau Aggregation by Increasing the Level of Acetylated Tau

  12. Crosstalk between Oxidative Stress and Tauopathy.

  13. Expanding the “minimalist” small molecule tagging approach to different bioactive compounds.

  14. Recent developments in metal catalyzed bio-orthogonal reactions for biomolecule tagging.

  15. Differentiation of Selectively Labeled Peptides using Solid-State Nanopores.

  16. Live-Cell Imaging and Profiling of c-Jun N-Terminal Kinases with Covalent Inhibitor-Derived Probes.

  17. Reinvestigation of O-salicylaldehyde ester functional group in aqueous buffer and discovery of a coumarin scaffold probe for selective N-terminal cysteine labeling.

  18. Discrimination of Avian Influenza Virus using Host-cell Infection Fingerprinting by Sulfinate-based Fluorescence Superoxide Probe.

  19. Chloro-functionalized photo-crosslinking BODIPY for glutathione sensing and sub-cellular trafficking.

  20. Mono-allyloxylated Cucurbit[7]uril Acts as an Unconventional Amphiphile to Form Light-responsive Vesicles.

  21. Identification of Tumor Initiating Cells by a Small Molecule Fluorescent Probe by Using Vimentin as a Biomarker.

  22. A vinyl sulfone-based fluorogenic probe capable of selective labeling of PHGDH in live mammalian cells.

  23. A novel computational method for biomedical binary data analysis: development of a thyroid disease index using a brute-force search with MLR analysis.

  24. A chemoselective cleavable fluorescence turn-on linker for proteomic studies.

  25. Tetrazole-based probes enable integration of phenotypic screening with target identification and distinct profiling of a cancer biomarker.

  26. Bulk aggregation based fluorescence turn-on sensors for selective detection of progesterone in aqueous solution.

  27. A suite of "minimalist" photo-crosslinkers for live-cell imaging and chemical proteomics: Case study with BRD4 inhibitors.

  28. Nano metamaterials for ultrasensitive Terahertz biosensing.

    • Lee, D. K.; Kang, J. H.; Kwon J.; Lee, J. S.; Lee, S.; Woo, D. H.; Kim, J. H.; Song, C. S.; Seo, M.

    • Sci. Rep. 2017, 7, 8146.

  29. Cell type selective imaging and profiling of newly synthesized proteomes by using puromycin analogues.

  30. Photo-affinity labelling (PAL) in chemical proteomics: A handy tool to investigate protein-protein interactions (PPIs)

  31. Global mapping of protein-lipid Interactions by using modified choline-containing phospholipids metabolically synthesized in live cells.

  32. β1,6-GlcNAc Linkage to the Core Glycan on TIMP-1 Affects Its Gelatinase Inhibitory Activities: Aberrantly Glycosylated TIMP-1-MMP2 Complex Modeling Shows Weaker Interaction Compared to Bi-antennary Glycosylated TIMP-1.

  33. Development of a BODIPY-based fluorescent probe for imaging pathological tau aggregates in live cells.

  34. In situ proteome profiling and bioimaging applications of small molecule affinity-based probes derived from DOT1L inhibitors.

  35. Tetrazole photoclick chemistry: Reinvestigating its suitability as a bioorthogonal reaction and potential applications.

  36. Combinatorial dansyl library and its applications to pH-responsive probes.

  37. 저분자 프로브를 이용한 분자영상법

  38. Highly sensitive and selective sugar detection by terahertz nano-antennas.

  39. Identification of disulfide cross-linked tau dimer responsible for tau propagation.

    • Kim, D. H.; Lim, S.; Haque, M.; Ryoo, N.; Hong, H. S.; Rhim, H.; Lee, D. E.; Chang, Y. T.; Lee, J. S.; Cheong, E.; Kim, D. J.; Kim, Y. K.

    • Sci. Rep. 2015, 5, 15231.

  40. A small molecule probe capable of selective profiling and imaging of Monoamine Oxidase B activities in Parkinson's Disease models.

  41. Rational design of a photo-crosslinking BODIPY for in situ protein labeling.

  42. Chemical proteomic identification of T-plastin as novel host cell response factor in HCV infection.

  43. Unbiased proteomic profiling strategy for discovery of bacterial effector proteins reveals that Salmonella protein PheA is a host cell cycle regulator.

  44. A small molecule protein-protein interaction inhibitor of PARP1 that targets its BRCT domain.

  45. Diversity oriented approach for chemical biology.

  46. Mechanistic elements and critical factors of cellular reprogramming revealed by stepwise global gene expression analyses.

  47. Proteome reactivity profiling for the discrimination of pathogenic bacteria.

  48. Diversity oriented fluorescence library approach (DOFLA) for live cell imaging probe development.

  49. Small-molecule probes elucidate global enzyme activity in a proteomic context.

  50. Focused fluorescent probe library for metal cations and biological anions.

  51. Study of thiazoline derivatives for the design of optimal fungicidal compounds using multiple linear regression (MLR).

  52. Identification of cancer cell-line origins using fluorescence image-based phenomic screening.

Ph.D. studies

  1. Diversity-oriented optical imaging probe development.

  2. Solid-phase synthesis of BODIPY dyes and development of an immunoglobulin fluorescent sensor.

  3. Site-selective labeling at Cys302 of aldehyde dehydrogenase unveils a selective mitochondrial stain.

  4. A colorimetric pH indicator and boronic acid ensemble array for quantitative sugar analysis.

  5. The binding of fluorophores to proteins depends on the cellular environment.

  6. Accelerating fluorescent sensor discovery: unbiased screening of a diversity-oriented BODIPY library.

  7. Fluorescence response profiling for small molecule sensors utilizing the green fluorescent protein chromophore and its derivatives.

  8. Synthesis and evaluation of stilbene derivatives as a potential imaging agent of amyloid plaques.

    • Hong, M. C.; Kim, Y. K.; Choi, J.Y.; Yang, S.Q.; Rhee, H.; Ryu, Y.H.; Choi, T.H.; Cheon, G. J.; An, G. I.; Kim, H.Y.; Kim, Y.; Kim, D.J.; Lee, J. S.; Chang, Y.T.; Lee, K.C.

    • Bioorg. Med. Chem. 2010, 18, 7724-7730.

  9. Quantitative structure-fluorescence property relationship analysis of a large BODIPY library.

  10. A fluorescent rosamine compound selectively stains pluripotent stem cells.

    • Im, C.N.; Kang, N.Y.; Ha, H. H.; Bi, X.; Lee, J.J.; Park, S.J.; Lee, S.Y.; Vendrell, M.; Kim, Y.K.; Lee, J. S.; Li, J.; Ahn, Y.H.; Feng, B.; Ng, H.H.; Yun, S. W.; Chang, Y. T.

    • Angew. Chem. Int. Ed., 2010, 49, 7497-7500.

    • Highlighted at "Fluorescence method detects stem cells", C&En News, 2010 (September 20), 88 (38), p 25

  11. Diversity-oriented fluorescence library approaches for probe discovery and development.

  12. Isozyme-specific fluorescent inhibitor of glutathione S-transferase omega 1.

  13. Control of muscle differentiation by a mitochondria-targeted fluorophore.

  14. Colorimetric sensor array for qualitative water analysis.

  15. Synthesis of a bodipy library and its application to the development of live cell glucagon imaging probe.

  16. Diversity-oriented fluorescence library approach for the discovery of sensors and probes.

  17. A selective human serum albumin sensor from screening of fluorescent rosamine library.

  18. Counterion free colorimetric metal cation sensor array.

  19. Understanding the activity of small molecules in the genomics context.

  20. Combinatorial rosamine library and application to in vivo glutathione probe.

  21. Colorimetric identification of carbohydrates by a pH indicator/ pH change inducer ensemble.

  22. Visual artificial tongue for quantitative metal cation analysis by an off-the-shelf dye array.

  23. Solid-phase synthesis of styryl dyes and their application as amyloid sensors.